net.maizegenetics.pangenome.db_loading

Class CreatePHGPostgresDockerPlugin

java.lang.Object

net.maizegenetics.plugindef.AbstractPlugin

net.maizegenetics.pangenome.db_loading.CreatePHGPostgresDockerPlugin

All Implemented Interfaces:

Runnable, net.maizegenetics.plugindef.Plugin, net.maizegenetics.plugindef.PluginListener, net.maizegenetics.util.ProgressListener

public class CreatePHGPostgresDockerPlugin
extends net.maizegenetics.plugindef.AbstractPlugin

This plugin will create the phg_postgres docker if it doesn't exist. If it does exist, the plugin returns with a message indicating so. WHy don't we delete existing images, then create a new image? Multiple reasons: 1. Because the phg_postgres Dockerfile does little more then run a specific postgres docker (with possible extensions to add users), the docker entry point is the postgres docker entry point. 2. Because of 1, any containers run against phg_postgres are actually associated with the official postgres docker image (you will see it if you run "docker images" ) 3. Because of 2, any real delete must involve deleting the postgres docker. 4. Deleting the postgres docker will fail if it has containers against it. Only the user can determine if those containers need to remain, or can be cancelled. 5. If there are no containers against the postgres docker, there still could be other applications using the postgres image. Deleting it makes assumptions about the user system. We don't want to go there. Therefore, no attempt will be made to delete a phg_postgres docker if it already exists.

Author:

lcj34

Field Summary

Fields inherited from class net.maizegenetics.plugindef.AbstractPlugin

DEFAULT_CITATION, POSITION_LIST_NONE, TAXA_LIST_NONE

Constructor Summary

Constructors

Constructor and Description
CreatePHGPostgresDockerPlugin()
CreatePHGPostgresDockerPlugin(Frame parentFrame)
CreatePHGPostgresDockerPlugin(Frame parentFrame, boolean isInteractive)

Method Summary

Modifier and Type	Method and Description
String	dockerCmd() The docker command name.
CreatePHGPostgresDockerPlugin	dockerCmd(String value) Set Docker Command.
String	dockerDir() Directory path where the file 'Dockerfile' exists for creating the PHG Postgresql docker
CreatePHGPostgresDockerPlugin	dockerDir(String value) Set Docker Directory.
String	getButtonName()
ImageIcon	getIcon()
String	getToolTipText()
static void	main(String[] args)
net.maizegenetics.plugindef.DataSet	processData(net.maizegenetics.plugindef.DataSet input)

Methods inherited from class net.maizegenetics.plugindef.AbstractPlugin

addListener, cancel, convert, dataSetReturned, getCitation, getInputs, getMenu, getPanel, getParameter, getParameter, getParentFrame, getUsage, getUsageHTML, isInteractive, performFunction, pluginDescription, pluginUserManualURL, progress, progress, receiveInput, reverseTrace, run, setConfigParameters, setParameter, setParameter, setParameter, setParameters, setParametersToDefault, setThreaded, trace, wasCancelled

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface net.maizegenetics.plugindef.Plugin

getPluginInstance, getPluginInstance, isPlugin

Constructor Detail

CreatePHGPostgresDockerPlugin

public CreatePHGPostgresDockerPlugin()

CreatePHGPostgresDockerPlugin

public CreatePHGPostgresDockerPlugin(Frame parentFrame)

CreatePHGPostgresDockerPlugin

public CreatePHGPostgresDockerPlugin(Frame parentFrame,
                                     boolean isInteractive)

Method Detail

processData

public net.maizegenetics.plugindef.DataSet processData(net.maizegenetics.plugindef.DataSet input)

Specified by:

processData in interface net.maizegenetics.plugindef.Plugin

Overrides:

processData in class net.maizegenetics.plugindef.AbstractPlugin

getIcon

public ImageIcon getIcon()

getButtonName

public String getButtonName()

getToolTipText

public String getToolTipText()

main

public static void main(String[] args)

dockerDir

public String dockerDir()

Directory path where the file 'Dockerfile' exists for creating the PHG Postgresql docker

Returns:

Docker Directory

dockerDir

public CreatePHGPostgresDockerPlugin dockerDir(String value)

Set Docker Directory. Directory path where the file 'Dockerfile' exists for creating the PHG Postgresql docker

Parameters:

value - Docker Directory

Returns:

this plugin

dockerCmd

public String dockerCmd()

The docker command name. Normally this is docker. On Cornell CBSU machines it is docker1. The default is docker.

Returns:

Docker Command

dockerCmd

public CreatePHGPostgresDockerPlugin dockerCmd(String value)

Set Docker Command. The docker command name. Normally this is docker. On Cornell CBSU machines it is docker1. The default is docker.

Parameters:

value - Docker Command

Returns:

this plugin